data_A3R # _chem_comp.id A3R _chem_comp.name " Adenosine Diphosphate (Hydroxymethyl)pyrrolidine monoalcohol" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H24 N6 O11 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2018-03-23 _chem_comp.pdbx_modified_date 2018-11-23 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 526.332 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A3R _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 6G2A _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal A3R C3N C1 C 0 1 N N N -17.212 4.249 24.716 -7.340 2.750 0.375 C3N A3R 1 A3R C2N C2 C 0 1 N N R -18.453 5.047 24.733 -7.989 3.367 -0.882 C2N A3R 2 A3R O2N O1 O 0 1 N N N -18.163 6.438 25.249 -8.069 4.787 -0.752 O2N A3R 3 A3R C1N C3 C 0 1 N N N -18.891 5.125 23.284 -7.048 2.987 -2.046 C1N A3R 4 A3R N4N N1 N 0 1 N N N -17.618 5.361 22.588 -6.334 1.774 -1.570 N4N A3R 5 A3R C4N C4 C 0 1 N N S -16.538 4.908 23.507 -6.063 2.049 -0.136 C4N A3R 6 A3R C5N C5 C 0 1 N N N -15.551 3.943 22.801 -5.831 0.742 0.624 C5N A3R 7 A3R O5N O2 O 0 1 N N N -14.481 3.591 23.660 -4.625 0.130 0.162 O5N A3R 8 A3R PB P1 P 0 1 N N N -13.389 2.512 23.230 -4.071 -1.265 0.744 PB A3R 9 A3R O2B O3 O 0 1 N N N -12.413 2.353 24.303 -5.102 -2.447 0.378 O2B A3R 10 A3R O1B O4 O 0 1 N N N -12.886 2.883 21.877 -3.936 -1.168 2.215 O1B A3R 11 A3R O3A O5 O 0 1 N N N -14.367 1.295 23.146 -2.634 -1.586 0.093 O3A A3R 12 A3R PA P2 P 0 1 N N N -14.057 -0.207 22.525 -1.446 -2.611 0.454 PA A3R 13 A3R O1A O6 O 0 1 N N N -12.625 -0.528 22.752 -1.270 -2.665 1.923 O1A A3R 14 A3R O2A O7 O 0 1 N N N -15.079 -1.061 23.069 -1.817 -4.078 -0.097 O2A A3R 15 A3R "O5'" O8 O 0 1 N N N -14.320 0.008 20.983 -0.078 -2.111 -0.232 "O5'" A3R 16 A3R "C5'" C6 C 0 1 N N N -15.533 0.538 20.477 1.181 -2.750 -0.015 "C5'" A3R 17 A3R "C4'" C7 C 0 1 N N R -15.797 -0.112 19.098 2.266 -2.024 -0.813 "C4'" A3R 18 A3R "O4'" O9 O 0 1 N N N -14.627 -0.027 18.259 2.517 -0.719 -0.248 "O4'" A3R 19 A3R "C3'" C8 C 0 1 N N S -16.061 -1.620 19.250 3.612 -2.772 -0.693 "C3'" A3R 20 A3R "O3'" O10 O 0 1 N N N -17.466 -1.892 19.412 3.830 -3.598 -1.839 "O3'" A3R 21 A3R "C2'" C9 C 0 1 N N R -15.562 -2.203 17.943 4.665 -1.643 -0.631 "C2'" A3R 22 A3R "O2'" O11 O 0 1 N N N -16.670 -2.554 17.122 5.567 -1.738 -1.735 "O2'" A3R 23 A3R "C1'" C10 C 0 1 N N R -14.728 -1.082 17.275 3.830 -0.346 -0.720 "C1'" A3R 24 A3R N9 N2 N 0 1 Y N N -13.361 -1.560 16.869 4.406 0.691 0.139 N9 A3R 25 A3R C8 C11 C 0 1 Y N N -12.473 -2.318 17.520 4.031 0.979 1.417 C8 A3R 26 A3R N7 N3 N 0 1 Y N N -11.408 -2.485 16.739 4.752 1.959 1.882 N7 A3R 27 A3R C5 C12 C 0 1 Y N N -11.615 -1.811 15.603 5.632 2.360 0.934 C5 A3R 28 A3R C4 C13 C 0 1 Y N N -12.831 -1.246 15.686 5.425 1.548 -0.194 C4 A3R 29 A3R N3 N4 N 0 1 Y N N -13.325 -0.486 14.689 6.172 1.741 -1.276 N3 A3R 30 A3R C2 C14 C 0 1 Y N N -12.561 -0.316 13.532 7.096 2.679 -1.294 C2 A3R 31 A3R N1 N5 N 0 1 Y N N -11.302 -0.914 13.465 7.327 3.467 -0.259 N1 A3R 32 A3R C6 C15 C 0 1 Y N N -10.865 -1.649 14.489 6.635 3.342 0.868 C6 A3R 33 A3R N6 N6 N 0 1 N N N -9.666 -2.234 14.436 6.884 4.172 1.948 N6 A3R 34 A3R H1 H1 H 0 1 N N N -17.409 3.180 24.550 -7.084 3.530 1.091 H1 A3R 35 A3R H2 H2 H 0 1 N N N -16.625 4.375 25.638 -8.014 2.025 0.831 H2 A3R 36 A3R H3 H3 H 0 1 N N N -19.228 4.561 25.344 -8.981 2.945 -1.042 H3 A3R 37 A3R H4 H4 H 0 1 N N N -17.889 6.389 26.157 -8.469 5.230 -1.513 H4 A3R 38 A3R H5 H5 H 0 1 N N N -19.593 5.956 23.124 -7.625 2.762 -2.943 H5 A3R 39 A3R H6 H6 H 0 1 N N N -19.356 4.184 22.957 -6.342 3.794 -2.242 H6 A3R 40 A3R H7 H7 H 0 1 N N N -17.588 4.837 21.737 -6.908 0.951 -1.678 H7 A3R 41 A3R H9 H9 H 0 1 N N N -15.973 5.784 23.857 -5.201 2.708 -0.032 H9 A3R 42 A3R H10 H10 H 0 1 N N N -16.090 3.031 22.506 -5.748 0.951 1.690 H10 A3R 43 A3R H11 H11 H 0 1 N N N -15.145 4.436 21.905 -6.670 0.067 0.451 H11 A3R 44 A3R H12 H12 H 0 1 N N N -11.541 2.519 23.965 -5.239 -2.568 -0.572 H12 A3R 45 A3R H13 H13 H 0 1 N N N -14.674 -1.779 23.542 -1.947 -4.117 -1.054 H13 A3R 46 A3R H14 H14 H 0 1 N N N -15.447 1.629 20.366 1.427 -2.717 1.047 H14 A3R 47 A3R H15 H15 H 0 1 N N N -16.359 0.304 21.165 1.122 -3.788 -0.342 H15 A3R 48 A3R H16 H16 H 0 1 N N N -16.663 0.371 18.621 1.972 -1.937 -1.859 H16 A3R 49 A3R H17 H17 H 0 1 N N N -15.477 -2.019 20.092 3.637 -3.371 0.218 H17 A3R 50 A3R H18 H18 H 0 1 N N N -17.768 -1.523 20.234 4.662 -4.090 -1.816 H18 A3R 51 A3R H19 H19 H 0 1 N N N -14.918 -3.073 18.141 5.211 -1.681 0.312 H19 A3R 52 A3R H20 H20 H 0 1 N N N -17.172 -3.242 17.544 6.074 -2.561 -1.759 H20 A3R 53 A3R H21 H21 H 0 1 N N N -15.267 -0.721 16.386 3.777 0.000 -1.753 H21 A3R 54 A3R H22 H22 H 0 1 N N N -12.598 -2.726 18.512 3.251 0.471 1.964 H22 A3R 55 A3R H23 H23 H 0 1 N N N -12.938 0.267 12.705 7.686 2.810 -2.189 H23 A3R 56 A3R H24 H24 H 0 1 N N N -9.229 -2.020 13.563 7.571 4.854 1.886 H24 A3R 57 A3R H25 H25 H 0 1 N N N -9.097 -1.896 15.185 6.372 4.071 2.765 H25 A3R 58 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A3R N1 C2 DOUB Y N 1 A3R N1 C6 SING Y N 2 A3R C2 N3 SING Y N 3 A3R N6 C6 SING N N 4 A3R C6 C5 DOUB Y N 5 A3R N3 C4 DOUB Y N 6 A3R C5 C4 SING Y N 7 A3R C5 N7 SING Y N 8 A3R C4 N9 SING Y N 9 A3R N7 C8 DOUB Y N 10 A3R N9 "C1'" SING N N 11 A3R N9 C8 SING Y N 12 A3R "O2'" "C2'" SING N N 13 A3R "C1'" "C2'" SING N N 14 A3R "C1'" "O4'" SING N N 15 A3R "C2'" "C3'" SING N N 16 A3R "O4'" "C4'" SING N N 17 A3R "C4'" "C3'" SING N N 18 A3R "C4'" "C5'" SING N N 19 A3R "C3'" "O3'" SING N N 20 A3R "C5'" "O5'" SING N N 21 A3R "O5'" PA SING N N 22 A3R O1B PB DOUB N N 23 A3R PA O1A DOUB N N 24 A3R PA O2A SING N N 25 A3R PA O3A SING N N 26 A3R N4N C1N SING N N 27 A3R N4N C4N SING N N 28 A3R C5N C4N SING N N 29 A3R C5N O5N SING N N 30 A3R O3A PB SING N N 31 A3R PB O5N SING N N 32 A3R PB O2B SING N N 33 A3R C1N C2N SING N N 34 A3R C4N C3N SING N N 35 A3R C3N C2N SING N N 36 A3R C2N O2N SING N N 37 A3R C3N H1 SING N N 38 A3R C3N H2 SING N N 39 A3R C2N H3 SING N N 40 A3R O2N H4 SING N N 41 A3R C1N H5 SING N N 42 A3R C1N H6 SING N N 43 A3R N4N H7 SING N N 44 A3R C4N H9 SING N N 45 A3R C5N H10 SING N N 46 A3R C5N H11 SING N N 47 A3R O2B H12 SING N N 48 A3R O2A H13 SING N N 49 A3R "C5'" H14 SING N N 50 A3R "C5'" H15 SING N N 51 A3R "C4'" H16 SING N N 52 A3R "C3'" H17 SING N N 53 A3R "O3'" H18 SING N N 54 A3R "C2'" H19 SING N N 55 A3R "O2'" H20 SING N N 56 A3R "C1'" H21 SING N N 57 A3R C8 H22 SING N N 58 A3R C2 H23 SING N N 59 A3R N6 H24 SING N N 60 A3R N6 H25 SING N N 61 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor A3R InChI InChI 1.03 "InChI=1S/C15H24N6O11P2/c16-13-10-14(19-5-18-13)21(6-20-10)15-12(24)11(23)9(31-15)4-30-34(27,28)32-33(25,26)29-3-7-1-8(22)2-17-7/h5-9,11-12,15,17,22-24H,1-4H2,(H,25,26)(H,27,28)(H2,16,18,19)/t7-,8+,9+,11+,12+,15+/m0/s1" A3R InChIKey InChI 1.03 PHEYQOBMMIEFLO-IBCGMDAMSA-N A3R SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@@H]4C[C@@H](O)CN4)[C@@H](O)[C@H]3O" A3R SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4C[CH](O)CN4)[CH](O)[CH]3O" A3R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OC[C@@H]4C[C@H](CN4)O)O)O)N" A3R SMILES "OpenEye OEToolkits" 2.0.6 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4CC(CN4)O)O)O)N" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier A3R "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{S},4~{R})-4-oxidanylpyrrolidin-2-yl]methyl hydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A3R "Create component" 2018-03-23 EBI A3R "Initial release" 2018-11-28 RCSB #